The Anthropocene causes many massive and novel impacts, e.g., on migratory birds and their habitats. Many species of migratory birds have been declining on the Palearctic-African flyway in recent decades. To investigate possible impacts on a continental scale, we used 18 predictors extracted from 16 publicly available GIS layers in combination with machine learning methods on the sub-Saharan distributions of 64 passerine migrant species. These bird species were categorized as having experienced a ‘Large Decline’ (n = 12), a ‘Moderate Decline’ (n = 6) or ‘No Decline’ (n = 46) based on European census data from 1970 to 1990. Therefore, we present the first study for these species which uses publically available Open Access GIS-data and a multivariate (n = 18) and multi-species (n = 64) machine learning approach to deduce possible past impacts. We furthermore modelled likely future human population change and climate change impacts. We identified three predictor themes related to the distributions and declines of these migratory birds: (I) locations, represented by African ecosystems, countries, and soil types; (II) human population pressures and land-use intensities, the latter represented by land-use categories, habitat area, and cropland proportion; and (III) climatic predictors. This is the first study to relate migratory bird declines to human population pressures and land-use intensities using this type of analysis. We also identified areas of conservation concern, such as the Sahel region. Our models also predict that the declining trends of migratory birds will continue into the foreseeable future across much of Africa. We then briefly discuss some wider conservation implications in the light of the increasing drivers of biodiversity change associated with the Anthropocene as well as some possible solutions. We argue that only comprehensive systemic change can mitigate the impacts on the migratory birds and their habitats.